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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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ALX1
ALX homeobox 1

The human orthologue of this gene is associated
with the following human disease:

Frontonasal dysplasia 3

Gene

Official Symbol	ALX1
Official Full Name	ALX homeobox 1
CGNC ID	8462
also known as	CART1, ALX homeobox protein 1\|cartilage paired-class homeoprotein 1, Cartilage homeoprotein 1 (CART-1)
gene type	protein-coding

Genomic Map

	Ensembl ID not known
	NCBI
	Gallus-Browse

Sequence Information

Genomic
RNA	XM_425445
Polypeptide	XP_425445
Sequence Clusters/ESTs	Unigene

Gene Expression

In Situ Hybridization	GEISHA
EST Profile

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human	8092	ENSG00000180318	MIM:613456	MIM:601527
Mouse	216285	ENSMUSG00000036602	All phenotypic alleles (4):Targeted, knock-out(1) Targeted, other(3)	MGI:104621
Xenopus	100489661, 373650			853094
Zebrafish	565176	ENSDARG00000062824	ZDB-GENE-050419-191, ZDB-GENE-050419-191	ZFIN:ZDB-GENE-050419-191, ZFIN:ZDB-GENE-050419-191

Gene Ontology

Molecular Function
Biological Process
Cellular Component

Links to other databases

Entrez Gene	427871
Ensembl Gene
KEGG	gga:427871

Entry 1

GEISHA Id	ALX1.53Z.A1	Data Source	GEISHA ISH Analysis
Forward cDNA Template Probe	show GGCGGCTCGAGAAGCAGCTCCCTGAGCTCCGTGTGCCTCTCCCTCCCTCCTTCCCTCCCATCCACTCCCCCTTCCCTGC TCACAGTCCAGCCTCTGTCTAGGGGAAGAGGCTCTCCGACAGCCTTAGATGATTATGGATTTTCTGAGTGAGAAGTTTG CCCTGAAGAGCCAGCCGAGCAAGAACAGTGACTTTTACATGGGAGCAGGAGGCACTTTGGAGCACGTTATGGAAACTTT GGACAATGAGTCCTTTTATAGCAAAACGTCAGGCAGCAAATGTGTGCAGGCCTTCAACCCTCTGCAAAGGGCTGAGCAT CATGTGAGGCTGGACAGGACATCACCCTGCCAAGACAACAACGGTAAGGTGACAGTCCAGCTGCATTCTGCTCCTTCTC ACCGGGTCGGCCTCTGCTCCTGCCCGGGAGAGTGGGGGCAGCCGCGCAGCCTTTGGGTGCTGGCATGTGAGATGCAGCC TGCTAAATAACAATTATAACAACACTATCTGTAACATCAGTAAGAATAATGATGATAACAGCGATGCAAAAAAATGGGA AAAGGCGACTGCTGGCTTAGAAGCACCCTTCGCCTTTCTGCTGCCCTCTCCGCCGGCACCGAACAAAGTTGCTGGGCTT TACCCCCTCCACTGGACACGCAGCTCGGTCAGGGGAACAGGCGGCGAGGAGGGAGGAAGGAGCCGGGCAGGGCTGCCGG GGAAGGGCCGCGGCGGAGCGGCGGGGCCTGGTGGTGCGGGAGAGCTCGGCTGCGGCCCCGGCGGAGGCTACAGAGAGCC CGGGGGCGCTGCGGCCTGTCCGCCCCGCGCCTCTCCGCTCCG

Stage

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Location (click to highlight)

Comments (click to highlight)

13-18

stage 17

Amnion
Face Mesenchyme

pericardium

19-23

stage 19

stage 23

Face Mesenchyme
Limb Buds
Neural Crest
Pharyngeal Arches and Clefts
Somatopleure

Entry 2

GEISHA Id	ALX1.UApcr	Data Source	GEISHA ISH Analysis
Forward cDNA Template Primer	TTATAAAAGCTTGCGGCCGCAGAATATGTGCAGGCCTTCAACCCTCCG
Reverse cDNA Template Primer	GCTCTAGAAATTAACCCTCACTAAAGGAAAAGCAGCAAGCTGGCTCAGAGC	cDNA Template Length	1387
Forward cDNA Template Probe	show TGGTTACGGAGGCTGAGCACGCGCAGGTTGAGGACTGACGTATCAGTTCCCCTACACATATTGATCATGCCCTTCCGTC TCTGCATGGTGTGCTTAGAGATTTACATCATGGTTCTAATACAAGAAATGAATTTTCCTTTACAGAGTTCTTCCATTAT GAAGTATTAATTTGAAAAGTATTAATTTTGTATACAGAATTGCTAAAAACCAATGGCATAGACATATTTGCTTAATTGG TTTATTCTTTTTTGCAAGTTCTATAATCATATTTCATCAAGTTGTACAACAGAACATGTTTCTATGTAAAAACTAAAAC AAAGAGGGTTTGTTGAACTTGATGCATGGTAAATCTATATGGTTTATTCGTAAGTTTTATTGTTAAATATGATTTTGCA TTTTTGTAAGCAGACATCACGTATATTGTGATTTCTAGCATTCCACACACGGCAGCTTATTGTTGTGTCCTTTAAATAT GGAAAATAAAAATGCTTTCAGTTTACTATTTAAAAAAAAAGATATGAAGAAAGGGTACAGCTATATTACTTAGCCCAGG AAATATTGGCAGCATGCTCTTTGGCTTTCATCCGTAGAACTGCAATGCTGGAAGATCTCCTTTCAAATTCCGGCTTGGT TTCAAAAGCATGACCATTGGTTGCCCCGGAGCCTAAAGAGTCAGTGAAAAAATTATTGAAAGGCTCATGGCTGAACGGA TTCTGGTGGTTTGAAAAGCCTGAGAAGCCCGAATCTTGTCCAGGGGGAATGGGAAAAGGTGTCAAACAGGAGGAAGTAT CCCGTGGTATCCTGCGGAAGTTACCGCAGAACCCTAGCGGCGTTCCCGCCCCCACATGTTCTGATCTGAAGAAACTGGC AACCTTGAAAAACGAATATAAAAATGCCACAAAGGCCTTAGTTGGGGGACGCCCAAAGCCCCCTTTCCCCCTTTGCCCT CATTGGGAACAACAGGAAACGGGCTGGGGACTCGTCCTAAAAGAGCGGCCCCTCGGCCATTGGGGAAGAGTTTTGGAAA ATTTTCCGTTCCCCCCTCCAACCGGGAAAAGGGGGGGGGTCCCTTCTCCGGGGGAAATGGGGCAACTTTCCCCATTTCA ATCCCCTTTCGGTTCCTTTCCGAAAACAAAAATTTAAATTTAAGAGCCTGGCCTTGGAAAAAGGGCCCCCCCTTTAATC CAAAACCATGTTTTTGGGGGGGGGGGACCCCACCAACAACCCTGCGGGGAGGGGCGTTTGCGCCTTTAAAAAAAA
Comments	No specific expression detected at or below stage 4.

Stage

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Location (click to highlight)

Comments (click to highlight)

4-6

stage 5

stage 6

Lateral Plate Mesoderm

7-12

stage 7

stage 8

stage 9

stage 10

Head Mesenchyme
Neural Crest

Dorsal view.
Ventral view.

13-18

stage 13

stage 14

stage 17

stage 18

Face Mesenchyme
Lateral Plate Mesoderm
Limb Buds
Somatic Mesoderm

19-24

stage 19

stage 21

Face Mesenchyme
Limb Buds
Somatic Mesoderm

25-26

stage 26

Face Mesenchyme
Outflow Tract
Pharyngeal Arches and Clefts
Somatic Mesoderm

Entry 3

GEISHA Id	CART1.Thompson.2010b	Data Source	Publication
Complete cDNA Template Probe	show GTCTAGGGGAAGAGGCTCTCCGACAGCCTTAGATGATTATGGATTTTCTGAGTGAGAAGTTTGCCCTGAAGAGCCAGCC GAGCAAGAACAGTGACTTTTACATGGGAGCAGGAGGCACTTTGGAGCACGTTATGGAAACTTTGGACAATGAGTCCTTT TATAGCAAAACGTCAGGCAGCAAATGTGTGCAGGCCTTCAACCCTCTGCAAAGGGCTGAGCATCATGTGAGGCTGGACA GGACATCACCCTGCCAAGACAACAACGTGAACTATGGGATTACTAAAGTGGAAGGACAGCCTCTTCACACAGAGCTCAA CAGGCCCTTGGACAACTGCAACAATCTGAGGATGTCTCCGGTGAAGGGGATGCAGGAGAAGGGGGAACTGGATGAACTG GGTGATAAGTGTGACAGCAATGTCTCCAGCAGTAAGAAGAGGAGACACAGAACAACTTTCACCAGTTTGCAGCTGGAGG AACTGGAGAAAGTCTTCCAGAAAACTCATTACCCTGATGTCTACGTGAGGGAGCAGCTAGCTCTGAGGACAGAGCTCAC CGAGGCCAGAGTCCAGGTTTGGTTCCAGAATAGAAGAGCAAAATGGAGGAAAAGAGAACGCTATGGGCAGATCCAGCAA GCTAAGAGCCATTTTGCTGCCACTTATGATATATCTGTTCTTCCAAGGACTGACAGCTATCCTCAGATTCAGAACAATC TGTGGGCGGGGAACACCGCTAGTGGTTCTGTGGTTACTTCCTGCATGATACCACGAGATACTTCCTCCTGTATGACACC TTATTCCCATTCACCCCGGACAGATTCTGGCTACACAGGCTTTTCAAACCACCAGAATCAGTTCAGCCATGTGCCTCTC AATAATTTTTTCACTGACTCTTTACTTTCTGGGGCAACCAATGGACATGCTTTTGAAACCAAGCCGGAATTTGAAAGGA GATCTTCCAGCATTGCAGTTCTACGGATGAAAGCCAAAGAGCATGCTGCCAATATTTCCTGGGCTATGTAATATAGCTG TACCCTTTCTTCATATCTTTTTTTTTAAATAGTAAACTGAAAGCATTTTTATTTTCCATATTTAAAGGACACAACAATA AGCTGCCGTGTGTGGAATGCTAGAAATCACAATATACGTGATGTCTGCTTACAAAAATGCAAAATCATATTTAACAATA AAACTTAAGAATAAACCATATAGATTTACCATGCATCAAGTTCAACAAACCCTCTTTGTTTTAGTTTTTATATAGAAAC ATGTTTTGTTGTACAACTTGATGAAATATGATTATAGAACTTGCAAAAAAGAATAAACCAATTAAGCAAATATGTCTAT GCCATTGGTTTTTAGCAATTCTGTATACAAAATTAATACTTTTCAAATTAATACTTCATAATGGAAGAACTCTGTAAAG GAAAATTCATTTCTTGTATTAGAACCATGATGTAAATCTCTAAGCACACCATGCAGAGAAGGAAATACATGATCACTAT GTTGTAGGTGGAATTTGTAGACCTAAGTTTCTCAATACTGTGCTGTGGCTCTGAGCCAGCTTGCTGCTTTTCTAAATGC ATGTAGAGCTCACTGGAGTTGTAGCAGTGCATAACTAACATAATGAGAAGGTAGTCCTTCATTTTATGAACTCAAGTGT ATTCCTATTACAGATTATGAGATTTTTAATAAAGATATCACTAAAAGCAGAATCAGTTTTTAACAGAGTTTCAAAGAAG TGCACAAATTGTGTAAATCAACTAGTTTAAATGAAATATTTAAGGTTTCAGATAGAATATCTTGAAACTTACAAACCAG
Citation	H. Thompson, J.S. Griffiths, G. Jeffery, I.M. McGonnell. The retinal pigment epithelium of the eye regulates the development of scleral cartilage. Dev Biol. 2010 November 1; 347(1-13): 40-52.
Copyright	2010
Comments	As insufficient information is provided in publication to verify exact sequence used to synthesize probe, the sequence below was obtained from NCBI (acc #XM_425445.3 ).

Stage

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Location (click to highlight)

Comments (click to highlight)

13-18

stage 18

Eye

19-23

stage 23

Eye

Entry 4

GEISHA Id	ALX1.McGonnell.2011	Data Source	Publication
Complete cDNA Template Probe	show GTCTAGGGGAAGAGGCTCTCCGACAGCCTTAGATGATTATGGATTTTCTGAGTGAGAAGTTTGCCCTGAAGAGCCAGCC GAGCAAGAACAGTGACTTTTACATGGGAGCAGGAGGCACTTTGGAGCACGTTATGGAAACTTTGGACAATGAGTCCTTT TATAGCAAAACGTCAGGCAGCAAATGTGTGCAGGCCTTCAACCCTCTGCAAAGGGCTGAGCATCATGTGAGGCTGGACA GGACATCACCCTGCCAAGACAACAACGTGAACTATGGGATTACTAAAGTGGAAGGACAGCCTCTTCACACAGAGCTCAA CAGGCCCTTGGACAACTGCAACAATCTGAGGATGTCTCCGGTGAAGGGGATGCAGGAGAAGGGGGAACTGGATGAACTG GGTGATAAGTGTGACAGCAATGTCTCCAGCAGTAAGAAGAGGAGACACAGAACAACTTTCACCAGTTTGCAGCTGGAGG AACTGGAGAAAGTCTTCCAGAAAACTCATTACCCTGATGTCTACGTGAGGGAGCAGCTAGCTCTGAGGACAGAGCTCAC CGAGGCCAGAGTCCAGGTTTGGTTCCAGAATAGAAGAGCAAAATGGAGGAAAAGAGAACGCTATGGGCAGATCCAGCAA GCTAAGAGCCATTTTGCTGCCACTTATGATATATCTGTTCTTCCAAGGACTGACAGCTATCCTCAGATTCAGAACAATC TGTGGGCGGGGAACACCGCTAGTGGTTCTGTGGTTACTTCCTGCATGATACCACGAGATACTTCCTCCTGTATGACACC TTATTCCCATTCACCCCGGACAGATTCTGGCTACACAGGCTTTTCAAACCACCAGAATCAGTTCAGCCATGTGCCTCTC AATAATTTTTTCACTGACTCTTTACTTTCTGGGGCAACCAATGGACATGCTTTTGAAACCAAGCCGGAATTTGAAAGGA GATCTTCCAGCATTGCAGTTCTACGGATGAAAGCCAAAGAGCATGCTGCCAATATTTCCTGGGCTATGTAATATAGCTG TACCCTTTCTTCATATCTTTTTTTTTAAATAGTAAACTGAAAGCATTTTTATTTTCCATATTTAAAGGACACAACAATA AGCTGCCGTGTGTGGAATGCTAGAAATCACAATATACGTGATGTCTGCTTACAAAAATGCAAAATCATATTTAACAATA AAACTTAAGAATAAACCATATAGATTTACCATGCATCAAGTTCAACAAACCCTCTTTGTTTTAGTTTTTATATAGAAAC ATGTTTTGTTGTACAACTTGATGAAATATGATTATAGAACTTGCAAAAAAGAATAAACCAATTAAGCAAATATGTCTAT GCCATTGGTTTTTAGCAATTCTGTATACAAAATTAATACTTTTCAAATTAATACTTCATAATGGAAGAACTCTGTAAAG GAAAATTCATTTCTTGTATTAGAACCATGATGTAAATCTCTAAGCACACCATGCAGAGAAGGAAATACATGATCACTAT GTTGTAGGTGGAATTTGTAGACCTAAGTTTCTCAATACTGTGCTGTGGCTCTGAGCCAGCTTGCTGCTTTTCTAAATGC ATGTAGAGCTCACTGGAGTTGTAGCAGTGCATAACTAACATAATGAGAAGGTAGTCCTTCATTTTATGAACTCAAGTGT ATTCCTATTACAGATTATGAGATTTTTAATAAAGATATCACTAAAAGCAGAATCAGTTTTTAACAGAGTTTCAAAGAAG TGCACAAATTGTGTAAATCAACTAGTTTAAATGAAATATTTAAGGTTTCAGATAGAATATCTTGAAACTTACAAACCAG
Citation	McGonnell IM, Graham A, Richardson J, Fish JL, Depew MJ, Dee CT, Holland PW, Takahashi T.. Evolution of the Alx homeobox gene family: parallel retention and independent loss of the vertebrate Alx3 gene. Evol Dev. 2011 July; 13(4): 343351.
Copyright	Copyright © 2011 Wiley Periodicals, Inc.